Reference implementation of the Graph Exchange File Format

Wave optical models and inverse algorithms for label-agnostic imaging of density & orientation.

computer vision models for single-cell phenotyping

PyTorch3D is FAIR's library of reusable components for deep learning with 3D data

TorchDR - PyTorch Dimensionality Reduction

Hydra is a framework for elegantly configuring complex applications

A napari reader and writer for the graph exchange file format (geff)

Utilities for computing common accuracy metrics on cell tracking challenge solutions with ground truth

A spatial graph datastructure for python

Cell Tracking metrics and tools for the CellTrackingChallenge as described in 'CHOTA: A Higher Order Accuracy Metric for Cell Tracking'

A high performance Python graph library implemented in Rust.

Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the …

Image processing in Python

A template repo used to make new napari plugins

napari: a fast, interactive, multi-dimensional image viewer for python

Python-MIP: collection of Python tools for the modeling and solution of Mixed-Integer Linear programs

Multi-Object Tracker using Integer Linear Equations

Segment images by pixel classification based on pre-trained convolutional layer feature extraction

The repository provides code for running inference with the Meta Segment Anything Model 2 (SAM 2), links for downloading the trained model checkpoints, and example notebooks that show how to use th…

A tool to support interactive machine learning for cryoET data